Locus 4736

Sequence ID 2R_DroMel_CAF1
Location 15,549,801 – 15,549,895
Length 94
Max. P 0.825576
window7621 window7622

overview

Window 1

Location 15,549,801 – 15,549,895
Length 94
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 78.92
Mean single sequence MFE -29.09
Consensus MFE -18.05
Energy contribution -18.77
Covariance contribution 0.72
Combinations/Pair 1.05
Mean z-score -1.78
Structure conservation index 0.62
SVM decision value 0.61
SVM RNA-class probability 0.797404
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15549801 94 + 20766785
-------------UUCGGCAUCCU-G----CAUUCGGGGU--UUAGUGCCGUUUGCCAUUUUGCAUGAUGCC-CUGCGCAUAUUUUGACACCUUGAGUGCAAGGUGUUGACGAUA
-------------.((((((((.(-(----((((((((((--(((((((.((..(.((((......)))).)-..))))))....))).)))))))))))).))))))))..... ( -33.50)
>DroVir_CAF1 469365 99 + 1
-------------UUUGCAGUUUUUGGCUG---UCUGUUGCCCAAUUGCCGUUUGCCAUUUUGCAUGAUGGAACAGCGCACAUUUUGACAGCUUGAGUGCAAGGUGUUGACGAUA
-------------((((((.((...(((((---((.(((((.......((((((((......))).)))))......))).))...))))))).)).))))))............ ( -27.62)
>DroPse_CAF1 382448 89 + 1
-------------UUCGGG------G----UAUUCGGGGU--UUAGUGCCUUUUGCCAUUUUGCAUGAUGCC-CUGCGCACAUUUUGACACCCUGAGUGCAAGGUGUUGACGAUA
-------------..((((------(----((((.(((((--.....))))).(((......))).))))))-)))(((((((((((.(((.....)))))))))).)).))... ( -27.10)
>DroWil_CAF1 636856 84 + 1
-------------------------G----UAUUCGGGGU-UUUAGUGCCUUUUGCCAUUUUGCAUGAUGCC-CUGUGCACAUUUUGACACCUUGAAUGCAAGGUGUUGACGAUA
-------------------------(----((..((((((-....((((.............))))...)))-)))))).....(..((((((((....))))))))..)..... ( -26.82)
>DroAna_CAF1 318632 107 + 1
ACGUUAUUCUGUAUUCGGUGUCCA-G----UAUUCGGGGU--UUAGUGCCUUUUGCCAUUUUGCAUGAUGCC-CUGCGCACAUUUUGACACCUUGAGUGCAAGGUGUUGACGAUA
.(((((.(((((((((((((((..-(----(...((((((--...((((.............))))...)))-)))...)).....))))))..)))))).)))...)))))... ( -32.72)
>DroPer_CAF1 347563 89 + 1
-------------UUCGGG------G----UAUUCGGGUU--UUAGUGCCUUUUGCCAUUUUGCAUGAUGCC-CUGCGCACAUUUUGACACCCUGAGUGCAAGGUGUUGACGAUA
-------------..((((------(----((((.((((.--.....))))..(((......))).))))))-)))(((((((((((.(((.....)))))))))).)).))... ( -26.80)
>consensus
_____________UUCGGG______G____UAUUCGGGGU__UUAGUGCCUUUUGCCAUUUUGCAUGAUGCC_CUGCGCACAUUUUGACACCUUGAGUGCAAGGUGUUGACGAUA
.................................(((.........((((.......((((......)))).......))))...(..((((((((....))))))))..)))).. (-18.05 = -18.77 +   0.72)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,549,801 – 15,549,895
Length 94
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -21.58
Consensus MFE -16.66
Energy contribution -16.93
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.41
Structure conservation index 0.77
SVM decision value 0.70
SVM RNA-class probability 0.825576
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15549801 94 - 20766785
UAUCGUCAACACCUUGCACUCAAGGUGUCAAAAUAUGCGCAG-GGCAUCAUGCAAAAUGGCAAACGGCACUAA--ACCCCGAAUG----C-AGGAUGCCGAA-------------
..((....((((((((....))))))))..............-((((((.((((...(((.....((......--.)))))..))----)-).)))))))).------------- ( -26.10)
>DroVir_CAF1 469365 99 - 1
UAUCGUCAACACCUUGCACUCAAGCUGUCAAAAUGUGCGCUGUUCCAUCAUGCAAAAUGGCAAACGGCAAUUGGGCAACAGA---CAGCCAAAAACUGCAAA-------------
.............(((((.....((((((.........((((((((((........))))..)))))).....(....).))---)))).......))))).------------- ( -24.80)
>DroPse_CAF1 382448 89 - 1
UAUCGUCAACACCUUGCACUCAGGGUGUCAAAAUGUGCGCAG-GGCAUCAUGCAAAAUGGCAAAAGGCACUAA--ACCCCGAAUA----C------CCCGAA-------------
..(((...((((((((....))))))))......((((((..-.))....(((......)))....))))...--....)))...----.------......------------- ( -18.90)
>DroWil_CAF1 636856 84 - 1
UAUCGUCAACACCUUGCAUUCAAGGUGUCAAAAUGUGCACAG-GGCAUCAUGCAAAAUGGCAAAAGGCACUAAA-ACCCCGAAUA----C-------------------------
..(((...((((((((....))))))))......((((....-.((..(((.....))))).....))))....-....)))...----.------------------------- ( -19.60)
>DroAna_CAF1 318632 107 - 1
UAUCGUCAACACCUUGCACUCAAGGUGUCAAAAUGUGCGCAG-GGCAUCAUGCAAAAUGGCAAAAGGCACUAA--ACCCCGAAUA----C-UGGACACCGAAUACAGAAUAACGU
....(((.((((((((....))))))))......((((((..-.))....(((......)))....))))...--..........----.-..)))................... ( -21.20)
>DroPer_CAF1 347563 89 - 1
UAUCGUCAACACCUUGCACUCAGGGUGUCAAAAUGUGCGCAG-GGCAUCAUGCAAAAUGGCAAAAGGCACUAA--AACCCGAAUA----C------CCCGAA-------------
..(((...((((((((....))))))))......((((((..-.))....(((......)))....))))...--....)))...----.------......------------- ( -18.90)
>consensus
UAUCGUCAACACCUUGCACUCAAGGUGUCAAAAUGUGCGCAG_GGCAUCAUGCAAAAUGGCAAAAGGCACUAA__ACCCCGAAUA____C______CCCGAA_____________
....(((.((((((((....)))))))).......(((.((...((.....))....)))))...)))............................................... (-16.66 = -16.93 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:08 2006